Teacher Notes - Bioinformatics Activity Bank - Franklin & Marshall ...


Dec 12, 2012 (4 years and 8 months ago)


Elizabeth Blosky

Bioinformatics Course
Summer 2012

Teacher Notes Template

Overview and concepts


This lesson will occur after a lesson where the students will
DNA by using primers and

student will be able to accept or reject his or her
hypothesis by completing gel electrophoresis

of the PCR product

and analyzing the results

compared to the other bacterial primer products and a

Grade level

Grades 9
12 (1

level biology course
college prep or honors)

Concepts covered

Primers, bacterial characteristics, gel electrophoresis

Prior knowledge required:

Prior to this lesson, students should have a solid understanding of cell structure and function. They
should also understand how

DNA is extracted from a cell (based on a previous cheek cell extraction lab),
the function of primers and the process of PCR (after completing an online simulation of the lab tool.)
Students should also understand the process of gel electrophoresis (afte
r completing an online
simulation of the lab tool.)

Learning objectives:

The following learning objectives are based on the Biology Keystone objectives:

Students will be able to
explain how genetic engineering has impacted the fields of medicine, forensic
and agriculture (e.g., selective breeding, gene splicing, cloning, genetically modified organisms, gene
, gel electrophoresis, PCR


Activity notes

Time frame

Gel electrophoresis group review of purpose, technique and result (5 minutes)

the ge
ls and run the gels for the 3
bacterial samples after the PCR is completed (30

While the gels are running, discuss

the results from research regarding basic
characteristics about the 3
4 bacterial samples
being used and the 2 prime
(20 minutes)

Analyze the gel results and draw conclusions for the protocol. (5 minutes)

Teaching Tips

This protocol is designed for a 43 minute clas
s period. Students may need
additional time to

the bacteria and primer information before thi
s lab if students are not very familia
with using the research tools or did not have enough time during the previous class period.


AP level students and possibly honors level biology students cou
ld possibly repeat a similar
protocol for this
lesson and the previous lesson during the ecology unit by gathering soil
samples from areas that surround the high school, isolate the bacteria in the soil and designing
primers for the PCR and gels.


A helpful online simulat
ion for students to p
ractice Gel Electrophoresis

before this lab is:


Students can access PubMed through the following website:


Gel Procedure from the protocol
Agarose Gel Electrophoresis of PCR Products for mtDNA


These teacher notes and resources were produced after discussin
g research being conducted in
Dr. Jamie Blair’s lab at Franklin and Marshall College by Jessica Mountz.

Gel procedure taken
from the Agarose Gel Electrophoresis of PCR Products for mtDNA Sequencing with a percent
agarose adjustment.)